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	Efficiently Detecting Protein Complexes from Protein Interaction Networks via Alternating Direction Method of Multipliers
	Hu, Lun1; Yuan, Xiaohui1; Liu, Xing1; Xiong, Shengwu1; Luo, Xin2,3
	2019-11-01
摘要	Protein complexes are crucial in improving our understanding of the mechanisms employed by proteins. Various computational algorithms have thus been proposed to detect protein complexes from protein interaction networks. However, given massive protein interactome data obtained by high-throughput technologies, existing algorithms, especially those with additionally consideration of biological information of proteins, either have low efficiency in performing their tasks or suffer from limited effectiveness. For addressing this issue, this work proposes to detect protein complexes from a protein interaction network with high efficiency and effectiveness. To do so, the original detection task is first formulated into an optimization problem according to the intuitive properties of protein complexes. After that, the framework of alternating direction method of multipliers is applied to decompose this optimization problem into several subtasks, which can be subsequently solved in a separate and parallel manner. An algorithm for implementing this solution is then developed. Experimental results on five large protein interaction networks demonstrated that compared to state-of-the-art protein complex detection algorithms, our algorithm outperformed them in terms of both effectiveness and efficiency. Moreover, as number of parallel processes increases, one can expect an even higher computational efficiency for the proposed algorithm with no compromise on effectiveness.
关键词	Protein complex protein interaction network alternating direction method of multipliers efficiency
DOI	10.1109/TCBB.2018.2844256
发表期刊	IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS
ISSN	1545-5963
卷号	16期号:6页码:1922-1935
通讯作者	Xiong, Shengwu(xiongsw@whut.edu.cn) ; Luo, Xin(luoxin21@cigit.ac.cn)
收录类别	SCI
WOS记录号	WOS:000507924300014
语种	英语